Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CTCF

Cell type

Cell type Class
Liver
Cell type
SNU-475
Primary Tissue
Liver
Tissue Diagnosis
Carcinoma Hepatocellular

Attributes by original data submitter

Sample

sample_name
SNU475_4_Dox_minus_CTCF_r2
antibody
CTCF (Cell Signaling Technology, #3418S, Lot 4)
biological_replicate
2
biomaterial_provider
American Type Culture Collection (ATCC)
cell_line
SNU475
cell_type
hepatocellular carcinoma
culture_collection
ATCC: CRL-2236
dev_stage
adult
disease
hepatocellular carcinoma
genetic_modification
Lentiviral/Retroviral vector-mediated
growth_condition
RPMI-1640 with 10% fetal bovine serum (FBS)
growth_protocol
maintained as adherent cells
sample_type
cultured cells
sex
male
temp
37

Sequenced DNA Library

library_name
475_4_m_CTCF_r2
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
"QIAseq Ultralow Input Library Kit (QIAGEN, #180492)"

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
59939017
Reads aligned (%)
98.1
Duplicates removed (%)
20.4
Number of peaks
1454 (qval < 1E-05)

hg19

Number of total reads
59939017
Reads aligned (%)
97.2
Duplicates removed (%)
21.1
Number of peaks
1037 (qval < 1E-05)

Base call quality data from DBCLS SRA